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Items: 1 to 20 of 115

1.

Comparative dynamic transcriptome analysis (cDTA) reveals mutual feedback between mRNA synthesis and degradation.

Sun M, Schwalb B, Schulz D, Pirkl N, Etzold S, Larivière L, Maier KC, Seizl M, Tresch A, Cramer P.

Genome Res. 2012 Jul;22(7):1350-9. doi: 10.1101/gr.130161.111. Epub 2012 Mar 30.

2.

Global analysis of eukaryotic mRNA degradation reveals Xrn1-dependent buffering of transcript levels.

Sun M, Schwalb B, Pirkl N, Maier KC, Schenk A, Failmezger H, Tresch A, Cramer P.

Mol Cell. 2013 Oct 10;52(1):52-62. doi: 10.1016/j.molcel.2013.09.010.

3.

Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast.

Miller C, Schwalb B, Maier K, Schulz D, Dümcke S, Zacher B, Mayer A, Sydow J, Marcinowski L, Dölken L, Martin DE, Tresch A, Cramer P.

Mol Syst Biol. 2011 Jan 4;7:458. doi: 10.1038/msb.2010.112.

4.
5.

Dynamic profiling of mRNA turnover reveals gene-specific and system-wide regulation of mRNA decay.

Munchel SE, Shultzaberger RK, Takizawa N, Weis K.

Mol Biol Cell. 2011 Aug 1;22(15):2787-95. doi: 10.1091/mbc.E11-01-0028. Epub 2011 Jun 16.

6.

Rpb4 subunit functions mainly in mRNA synthesis by RNA polymerase II.

Schulz D, Pirkl N, Lehmann E, Cramer P.

J Biol Chem. 2014 Jun 20;289(25):17446-52. doi: 10.1074/jbc.M114.568014. Epub 2014 May 5.

7.

Periodic mRNA synthesis and degradation co-operate during cell cycle gene expression.

Eser P, Demel C, Maier KC, Schwalb B, Pirkl N, Martin DE, Cramer P, Tresch A.

Mol Syst Biol. 2014 Jan 30;10:717. doi: 10.1002/msb.134886. Print 2014. Erratum in: Mol Syst Biol. 2014;10:726.

8.

Coupled evolution of transcription and mRNA degradation.

Dori-Bachash M, Shema E, Tirosh I.

PLoS Biol. 2011 Jul;9(7):e1001106. doi: 10.1371/journal.pbio.1001106. Epub 2011 Jul 19.

9.
10.

Gene expression is circular: factors for mRNA degradation also foster mRNA synthesis.

Haimovich G, Medina DA, Causse SZ, Garber M, Millán-Zambrano G, Barkai O, Chávez S, Pérez-Ortín JE, Darzacq X, Choder M.

Cell. 2013 May 23;153(5):1000-11. doi: 10.1016/j.cell.2013.05.012.

11.

Transcriptome kinetics is governed by a genome-wide coupling of mRNA production and degradation: a role for RNA Pol II.

Shalem O, Groisman B, Choder M, Dahan O, Pilpel Y.

PLoS Genet. 2011 Sep;7(9):e1002273. doi: 10.1371/journal.pgen.1002273. Epub 2011 Sep 8. Erratum in: PLoS Genet. 2011 Sep;7(9). doi: 10.1371/annotation/7919492c-3e4b-4363-96da-f75281c1340c.

12.

Determination of in vivo RNA kinetics using RATE-seq.

Neymotin B, Athanasiadou R, Gresham D.

RNA. 2014 Oct;20(10):1645-52. doi: 10.1261/rna.045104.114. Epub 2014 Aug 26.

13.

Measurement of genome-wide RNA synthesis and decay rates with Dynamic Transcriptome Analysis (DTA).

Schwalb B, Schulz D, Sun M, Zacher B, Dümcke S, Martin DE, Cramer P, Tresch A.

Bioinformatics. 2012 Mar 15;28(6):884-5. doi: 10.1093/bioinformatics/bts052. Epub 2012 Jan 28.

14.

Nonsense-mediated decay of ash1 nonsense transcripts in Saccharomyces cerevisiae.

Zheng W, Finkel JS, Landers SM, Long RM, Culbertson MR.

Genetics. 2008 Nov;180(3):1391-405. doi: 10.1534/genetics.108.095737. Epub 2008 Sep 14.

15.

Genome wide expression analysis of the CCR4-NOT complex indicates that it consists of three modules with the NOT module controlling SAGA-responsive genes.

Cui Y, Ramnarain DB, Chiang YC, Ding LH, McMahon JS, Denis CL.

Mol Genet Genomics. 2008 Apr;279(4):323-37. doi: 10.1007/s00438-007-0314-1. Epub 2008 Jan 23.

PMID:
18214544
16.

Roles of mRNA fate modulators Dhh1 and Pat1 in TNRC6-dependent gene silencing recapitulated in yeast.

Makino S, Mishima Y, Inoue K, Inada T.

J Biol Chem. 2015 Mar 27;290(13):8331-47. doi: 10.1074/jbc.M114.615088. Epub 2015 Feb 5.

17.

Balance between transcription and RNA degradation is vital for Saccharomyces cerevisiae mitochondria: reduced transcription rescues the phenotype of deficient RNA degradation.

Rogowska AT, Puchta O, Czarnecka AM, Kaniak A, Stepien PP, Golik P.

Mol Biol Cell. 2006 Mar;17(3):1184-93. Epub 2005 Dec 21.

18.

YRA1 autoregulation requires nuclear export and cytoplasmic Edc3p-mediated degradation of its pre-mRNA.

Dong S, Li C, Zenklusen D, Singer RH, Jacobson A, He F.

Mol Cell. 2007 Feb 23;25(4):559-73.

19.

Contributions of transcription and mRNA decay to gene expression dynamics of fission yeast in response to oxidative stress.

Marguerat S, Lawler K, Brazma A, Bähler J.

RNA Biol. 2014;11(6):702-14. Epub 2014 Jul 9.

20.

The Rpb4/7 module of RNA polymerase II is required for carbon catabolite repressor protein 4-negative on TATA (Ccr4-not) complex to promote elongation.

Babbarwal V, Fu J, Reese JC.

J Biol Chem. 2014 Nov 28;289(48):33125-30. doi: 10.1074/jbc.C114.601088. Epub 2014 Oct 14.

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